Tag: Method

ShortRead 1.42.0 – Classes and Methods for High-throughput Short-read Sequencing data

ShortRead 1.42.0

:: DESCRIPTION

ShortRead is a package for input, quality assessment, manipulation and output of high-throughput sequencing data.

:: DEVELOPER

ShortRead team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Mac OsX/Windows
  • R package
  • BioConductor

:: DOWNLOAD

 ShortRead

:: MORE INFORMATION

Citation

Bioinformatics. 2009 Oct 1;25(19):2607-8. doi: 10.1093/bioinformatics/btp450.
ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data.
Morgan M, Anders S, Lawrence M, Aboyoun P, Pagès H, Gentleman R.

ISS – In-silico Gene Sequencing Method

ISS

:: DESCRIPTION

ISS (in silico gene sequencing method) predicts phased sequences of intragenic regions, using SNPs. The key underlying idea of the method is to infer diploid sequences (a pair of phased sequences/alleles) at every functional locus utilizing the deep sequencing data from the 1000 Genomes Project and SNP data from the HapMap Project, and to build prediction models using flanking SNPs.

::DEVELOPER

Fred Hutchinson Cancer Research Center

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 ISS

:: MORE INFORMATION

Citation

Zhang XC, Zhang B, Li SS, Huang X, Hansen JA, Zhao LP
Sequencing Genes in-silico Using Single Nucleotide Polymorphisms.
BMC Genetics 2012, 13:6

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